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destiny

R package for single cell and other data analysis using diffusion maps

https://github.com/theislab/destiny

Science Score: 36.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 2 DOI reference(s) in README
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    2 of 12 committers (16.7%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (5.2%) to scientific vocabulary

Keywords

diffusion-maps dimensionality-reduction r

Keywords from Contributors

bioconductor-package gene genomics bioinformatics proteomics mass-spectrometry core-package pathway-analysis metabolomics bioconductor
Last synced: 6 months ago · JSON representation

Repository

R package for single cell and other data analysis using diffusion maps

Basic Info
Statistics
  • Stars: 88
  • Watchers: 4
  • Forks: 13
  • Open Issues: 31
  • Releases: 0
Topics
diffusion-maps dimensionality-reduction r
Created over 8 years ago · Last pushed over 1 year ago
Metadata Files
Readme Changelog License Roadmap

README.md

destiny

An R package for diffusion maps, with additional features for large-scale and single cell data.

builds

  • R-CMD-check-bioc
  • Bioconductor stable – Bioconductor stable
  • Bioconductor devel – Bioconductor devel

Owner

  • Name: Theis Lab
  • Login: theislab
  • Kind: organization
  • Email: icb.office@helmholtz-muenchen.de
  • Location: Munich

Institute of Computational Biology

GitHub Events

Total
  • Issues event: 1
  • Watch event: 10
  • Delete event: 9
  • Issue comment event: 3
  • Push event: 10
  • Pull request event: 2
  • Fork event: 3
  • Create event: 1
Last Year
  • Issues event: 1
  • Watch event: 10
  • Delete event: 9
  • Issue comment event: 3
  • Push event: 10
  • Pull request event: 2
  • Fork event: 3
  • Create event: 1

Committers

Last synced: 9 months ago

All Time
  • Total Commits: 483
  • Total Committers: 12
  • Avg Commits per committer: 40.25
  • Development Distribution Score (DDS): 0.54
Past Year
  • Commits: 10
  • Committers: 2
  • Avg Commits per committer: 5.0
  • Development Distribution Score (DDS): 0.2
Top Committers
Name Email Commits
Philipp A f****p@w****e 222
Philipp Angerer p****r@h****e 220
Nitesh Turaga n****a@g****m 14
J Wokaty j****y@s****u 10
Dan Tenenbaum d****a@f****g 4
Herve Pages h****s@f****g 4
vobencha v****a@g****m 2
Hervé Pagès h****s@f****g 2
vobencha v****n@r****g 2
Sonali Arora s****a@f****g 1
Loyal Goff l****f@g****m 1
Lori Shepherd l****d@r****g 1
Committer Domains (Top 20 + Academic)
fhcrc.org: 3 roswellpark.org: 2 fredhutch.org: 1 sph.cuny.edu: 1 helmholtz-muenchen.de: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 107
  • Total pull requests: 19
  • Average time to close issues: 4 months
  • Average time to close pull requests: 3 days
  • Total issue authors: 43
  • Total pull request authors: 2
  • Average comments per issue: 2.52
  • Average comments per pull request: 0.26
  • Merged pull requests: 19
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 1
  • Average time to close issues: N/A
  • Average time to close pull requests: about 1 hour
  • Issue authors: 0
  • Pull request authors: 1
  • Average comments per issue: 0
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • flying-sheep (5)
  • MikeDMorgan (4)
  • mayanbriller (2)
  • Kensei-K (2)
  • gerrardmai (2)
  • liuweihanty (2)
  • cesarsierran (2)
  • tkapello (2)
  • taylorreiter (2)
  • galicae (1)
  • sam-israel (1)
  • SBassler (1)
  • emma-sumner (1)
  • bbimber (1)
  • vjcitn (1)
Pull Request Authors
  • flying-sheep (11)
  • Loyale (1)
Top Labels
Issue Labels
question (5) invalid (2) enhancement (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 152,799 total
  • Total dependent packages: 4
  • Total dependent repositories: 0
  • Total versions: 5
  • Total maintainers: 1
bioconductor.org: destiny

Creates diffusion maps

  • Versions: 5
  • Dependent Packages: 4
  • Dependent Repositories: 0
  • Downloads: 152,799 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.0%
Average: 3.3%
Downloads: 9.9%
Maintainers (1)
phil.angerer@gmail.com
Last synced: 6 months ago

Dependencies

DESCRIPTION cran
  • R >= 3.4.0 depends
  • SingleCellExperiment * enhances
  • rgl * enhances
  • Biobase * imports
  • BiocGenerics * imports
  • Matrix * imports
  • RSpectra >= 0.14 imports
  • Rcpp >= 0.10.3 imports
  • RcppEigen * imports
  • RcppHNSW * imports
  • SingleCellExperiment * imports
  • SummarizedExperiment * imports
  • VIM * imports
  • ggplot.multistats * imports
  • ggplot2 * imports
  • ggthemes * imports
  • grDevices * imports
  • graphics * imports
  • grid * imports
  • irlba * imports
  • knn.covertree * imports
  • methods * imports
  • pcaMethods * imports
  • proxy * imports
  • scales * imports
  • scatterplot3d * imports
  • smoother * imports
  • stats * imports
  • tidyr * imports
  • tidyselect * imports
  • utils * imports
  • FNN * suggests
  • conflicted * suggests
  • cowplot * suggests
  • gridExtra * suggests
  • igraph * suggests
  • knitr * suggests
  • org.Mm.eg.db * suggests
  • repr * suggests
  • rgl * suggests
  • rmarkdown * suggests
  • scRNAseq * suggests
  • scran * suggests
  • testthat * suggests
  • tidyverse * suggests
  • viridis * suggests
.github/workflows/check-bioc.yml actions
  • actions/cache v2 composite
  • actions/checkout v2 composite
  • actions/upload-artifact master composite
  • docker/build-push-action v1 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite